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Genetic dissection of grain weight in bread wheat through quantitative trait locus interval and association mapping

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Abstract

Genetic dissection of grain weight in bread wheat was undertaken through both genome-wide quantitative trait locus (QTL) interval mapping and association mapping. QTL interval mapping involved preparation of a framework linkage map consisting of 294 loci {194 simple sequence repeats (SSRs), 86 amplified fragment length polymorphisms (AFLPs) and 14 selective amplifications of microsatellite polymorphic loci (SAMPL)} using a bi-parental recombinant inbred line (RIL) mapping population derived from Rye Selection111 × Chinese Spring. Using the genotypic data and phenotypic data on grain weight (GW) of RILs collected over six environments, genome-wide single locus QTL analysis was conducted to identify main effect QTL. This led to identification of as many as ten QTL including four major QTL (three QTL were stable), each contributing >20% phenotypic variation (PV) for GW. The above study was supplemented with association mapping, which allowed identification of 11 new markers in the genomic regions that were not reported earlier to harbour any QTL for GW. It also allowed identification of closely linked markers for six known QTL, and validation of eight QTL reported earlier. The QTL identified through QTL interval mapping and association mapping may prove useful in marker-assisted selection (MAS) for the development of cultivars with high GW in bread wheat.

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Acknowledgments

Thanks are due to Department of Biotechnology (DBT), Government of India for providing financial support to carry out this study. Financial support was also received from the DST through FIST-program and from the University Grants Commission (UGC), New Delhi through SAP-DRS program. R.R.M. was awarded Senior Research Fellowships (SRF) by Council of Scientific & Industrial Research (CSIR), New Delhi and P.K.G. was earlier awarded a position of INSA Honorary Scientist and later a position of NASI Senior Scientist.

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Authors and Affiliations

  1. Molecular Biology Laboratory, Department of Genetics and Plant Breeding, Ch. Charan Singh University, Meerut, 250004, India

    R. R. Mir, N. Kumar, V. Jaiswal, N. Girdharwal, H. S. Balyan & P. K. Gupta

  2. Global-Theme Biotechnology, International Crops Research Institute for Semi-Arid Tropics (ICRISAT), Patancheru, Hyderabad, 502324, India

    R. R. Mir

  3. Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA

    N. Kumar

  4. National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, 110067, India

    M. Prasad

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  1. R. R. Mir
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  4. N. Girdharwal
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  6. H. S. Balyan
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  7. P. K. Gupta
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Correspondence to P. K. Gupta.

Electronic supplementary material

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11032_2011_9693_MOESM1_ESM.tif

Supplementary material 1 (TIFF 19703 kb) Population structure plot of 230 Indian bread wheat cultivars based on 42 unlinked SSRs. Different vertical bars represent different individuals and 13 sub-groups represent 13 sub-populations

11032_2011_9693_MOESM2_ESM.tif

Supplementary material 2 (TIFF 6226 kb) Comparative map positions of a specific genomic region (indicated by vertical line) on chromosome 4D harbouring QTL for six important traits including grain weight. Using markers from the corresponding genomic region from the map of Somers et al. (2004) in association mapping, one marker (Xwmc89) indicated with a star showed significant association with GW and is close, placed at a distance of 2 cM to the closest available marker Xwmc48

Supplementary material 3 (DOC 67 kb)

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Mir, R.R., Kumar, N., Jaiswal, V. et al. Genetic dissection of grain weight in bread wheat through quantitative trait locus interval and association mapping. Mol Breeding 29, 963–972 (2012). https://doi.org/10.1007/s11032-011-9693-4

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